Thomas Ioerger - Publications

Affiliations: 
Texas A & M University, College Station, TX, United States 
Area:
Computer Science

138 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Subramaniyam S, DeJesus MA, Zaveri A, Smith CM, Baker RE, Ehrt S, Schnappinger D, Sassetti CM, Ioerger TR. Statistical analysis of variability in TnSeq data across conditions using zero-inflated negative binomial regression. Bmc Bioinformatics. 20: 603. PMID 31752678 DOI: 10.1186/s12859-019-3156-z  0.92
2019 Dragset MS, Ioerger TR, Zhang YJ, Mærk M, Ginbot Z, Sacchettini JC, Flo TH, Rubin EJ, Steigedal M. Genome-wide Phenotypic Profiling Identifies and Categorizes Genes Required for Mycobacterial Low Iron Fitness. Scientific Reports. 9: 11394. PMID 31388080 DOI: 10.1038/S41598-019-47905-Y  0.6
2019 Carey AF, Rock JM, Krieger IV, Chase MR, Fernandez-Suarez M, Gagneux S, Sacchettini JC, Ioerger TR, Fortune SM. Correction: TnSeq of Mycobacterium tuberculosis clinical isolates reveals strain-specific antibiotic liabilities. Plos Pathogens. 15: e1007846. PMID 31163081 DOI: 10.1371/journal.ppat.1007846  0.6
2018 Ellenbarger J, Krieger I, Huang HL, Gómez-Coca S, Ioerger TR, Sacchettini JC, Wheeler SE, Dunbar KR. Anion-π Interactions in Computer-Aided Drug Design: Modeling the Inhibition of Malate Synthase by Phenyl-Diketo Acids. Journal of Chemical Information and Modeling. PMID 30137983 DOI: 10.2210/Pdb6Dnp/Pdb  0.6
2018 Singh SB, Odingo J, Bailey MA, Sunde B, Korkegian A, O'Malley T, Ovechkina Y, Ioerger TR, Sacchettini JC, Young K, Olsen DB, Parish T. Identification of cyclic hexapeptides natural products with inhibitory potency against Mycobacterium tuberculosis. Bmc Research Notes. 11: 416. PMID 29954459 DOI: 10.1186/S13104-018-3526-Z  0.6
2018 Tiwari D, Park SW, Essawy MM, Dawadi S, Mason A, Nandakumar M, Zimmerman M, Mina M, Ho HP, Engelhart CA, Ioerger T, Sacchettini JC, Rhee K, Ehrt S, Aldrich CC, et al. Targeting protein biotinylation enhances tuberculosis chemotherapy. Science Translational Medicine. 10. PMID 29695454 DOI: 10.1126/Scitranslmed.Aal1803  0.6
2018 Carey AF, Rock JM, Krieger IV, Chase MR, Fernandez-Suarez M, Gagneux S, Sacchettini JC, Ioerger TR, Fortune SM. TnSeq of Mycobacterium tuberculosis clinical isolates reveals strain-specific antibiotic liabilities. Plos Pathogens. 14: e1006939. PMID 29505613 DOI: 10.1371/Journal.Ppat.1006939  0.6
2018 Negri A, Javidnia P, Mu R, Zhang X, Vendome J, Gold B, Roberts J, Barman D, Ioerger T, Sacchettini JC, Jiang X, Burns-Huang K, Warrier T, Ling Y, Warren JD, et al. Identification of a Mycothiol-Dependent Nitroreductase from Mycobacterium tuberculosis. Acs Infectious Diseases. PMID 29465985 DOI: 10.1021/Acsinfecdis.7B00111  0.6
2017 Chandrasekara NS, Berube BJ, Shetye G, Chettiar S, O'Malley T, Manning A, Flint L, Awasthi D, Ioerger TR, Sacchettini JC, Masquelin T, Hipskind PA, Odingo J, Parish T. Improved phenoxyalkylbenzimidazoles with activity against Mycobacterium tuberculosis appear to target QcrB. Acs Infectious Diseases. PMID 29035551 DOI: 10.1021/Acsinfecdis.7B00112  0.6
2017 Yadon AN, Maharaj K, Adamson JH, Lai YP, Sacchettini JC, Ioerger TR, Rubin EJ, Pym AS. A comprehensive characterization of PncA polymorphisms that confer resistance to pyrazinamide. Nature Communications. 8: 588. PMID 28928454 DOI: 10.1038/S41467-017-00721-2  0.6
2017 Xu W, DeJesus MA, Rücker N, Engelhart CA, Wright MG, Healy C, Lin K, Wang R, Park SW, Ioerger TR, Schnappinger D, Ehrt S. Chemical genomic interaction profiling reveals determinants of intrinsic antibiotic resistance in Mycobacterium tuberculosis. Antimicrobial Agents and Chemotherapy. PMID 28893793 DOI: 10.1128/AAC.01334-17  0.92
2017 Aggarwal A, Parai MK, Shetty N, Wallis D, Woolhiser L, Hastings C, Dutta NK, Galaviz S, Dhakal RC, Shrestha R, Wakabayashi S, Walpole C, Matthews D, Floyd D, Scullion P, ... ... Ioerger TR, et al. Development of a Novel Lead that Targets M. tuberculosis Polyketide Synthase 13. Cell. PMID 28669536 DOI: 10.1016/J.Cell.2017.06.025  0.6
2017 Perkowski EF, Zulauf KE, Weerakoon D, Hayden JD, Ioerger TR, Oreper D, Gomez SM, Sacchettini JC, Braunstein M. Erratum for Perkowski et al., "The EXIT Strategy: an Approach for Identifying Bacterial Proteins Exported during Host Infection". Mbio. 8. PMID 28634243 DOI: 10.1128/Mbio.00872-17  0.6
2017 Perkowski EF, Zulauf KE, Weerakoon D, Hayden JD, Ioerger TR, Oreper D, Gomez SM, Sacchettini JC, Braunstein M. The EXIT Strategy: an Approach for Identifying Bacterial Proteins Exported during Host Infection. Mbio. 8. PMID 28442606 DOI: 10.1128/Mbio.00333-17  0.6
2017 DeJesus MA, Nambi S, Smith CM, Baker RE, Sassetti CM, Ioerger TR. Statistical analysis of genetic interactions in Tn-Seq data. Nucleic Acids Research. PMID 28334803 DOI: 10.1093/nar/gkx128  0.92
2017 Gomez JE, Kaufmann-Malaga BB, Wivagg CN, Kim PB, Silvis MR, Renedo N, Ioerger TR, Ahmad R, Livny J, Fishbein S, Sacchettini JC, Carr SA, Hung DT. Ribosomal mutations promote the evolution of antibiotic resistance in a multidrug environment. Elife. 6. PMID 28220755 DOI: 10.7554/Elife.20420  0.6
2017 DeJesus MA, Gerrick ER, Xu W, Park SW, Long JE, Boutte CC, Rubin EJ, Schnappinger D, Ehrt S, Fortune SM, Sassetti CM, Ioerger TR. Comprehensive Essentiality Analysis of the Mycobacterium tuberculosis Genome via Saturating Transposon Mutagenesis. Mbio. 8. PMID 28096490 DOI: 10.1128/Mbio.02133-16  0.92
2016 Korte J, Alber M, Trujillo CM, Syson K, Koliwer-Brandl H, Deenen R, Köhrer K, DeJesus MA, Hartman T, Jacobs WR, Bornemann S, Ioerger TR, Ehrt S, Kalscheuer R. Trehalose-6-Phosphate-Mediated Toxicity Determines Essentiality of OtsB2 in Mycobacterium tuberculosis In Vitro and in Mice. Plos Pathogens. 12: e1006043. PMID 27936238 DOI: 10.1371/journal.ppat.1006043  0.92
2016 Palencia A, Li X, Bu W, Choi W, Ding CZ, Easom EE, Feng L, Hernandez V, Houston P, Liu L, Meewan M, Mohan M, Rock FL, Sexton H, Zhang S, ... ... Ioerger TR, et al. Discovery of novel oral protein synthesis inhibitors of Mycobacterium tuberculosis that target leucyl-tRNA synthetase. Antimicrobial Agents and Chemotherapy. PMID 27503647 DOI: 10.1128/Aac.01339-16  0.6
2016 Lanzas F, Ioerger TR, Shah H, Acosta W, Karakousis PC. First evaluation of GenoType MTBDRPlus 2.0 performed directly on respiratory specimens in Central America. Journal of Clinical Microbiology. PMID 27440816 DOI: 10.1128/JCM.01196-16  0.92
2016 Boutte CC, Baer CE, Papavinasasundaram K, Liu W, Chase MR, Meniche X, Fortune SM, Sassetti CM, Ioerger TR, Rubin EJ. A cytoplasmic peptidoglycan amidase homologue controls mycobacterial cell wall synthesis. Elife. 5. PMID 27304077 DOI: 10.7554/Elife.14590  0.92
2016 Almeida D, Ioerger T, Tyagi S, Li SY, Mdluli K, Andries K, Grosset J, Sacchettini J, Nuermberger E. Mutations in pepQ Confer Low-level Resistance to Bedaquiline and Clofazimine in Mycobacterium tuberculosis. Antimicrobial Agents and Chemotherapy. PMID 27185800 DOI: 10.1128/Aac.00753-16  0.92
2016 DeJesus MA, Ioerger TR. Normalization of transposon-mutant library sequencing datasets to improve identification of conditionally essential genes. Journal of Bioinformatics and Computational Biology. 1642004. PMID 26932272 DOI: 10.1142/S021972001642004X  0.92
2015 Swanson S, Ioerger TR, Rigel NW, Miller BK, Braunstein M, Sacchettini JC. Structural similarities and differences between two functionally distinct SecA proteins: the Mycobacterium tuberculosis SecA1 and SecA2. Journal of Bacteriology. PMID 26668263 DOI: 10.1128/Jb.00696-15  0.92
2015 Lanoix JP, Ioerger T, Ormond A, Kaya F, Sacchettini J, Dartois V, Nuermberger E. Selective Inactivity of Pyrazinamide against Tuberculosis in C3HeB/FeJ Mice Is Best Explained by Neutral pH of Caseum. Antimicrobial Agents and Chemotherapy. 60: 735-43. PMID 26574016 DOI: 10.1128/Aac.01370-15  0.92
2015 Maksymiuk C, Ioerger T, Balakrishnan A, Bryk R, Rhee K, Sacchettini J, Nathan C. Comparison of transposon and deletion mutants in Mycobacterium tuberculosis: The case of rv1248c, encoding 2-hydroxy-3-oxoadipate synthase. Tuberculosis (Edinburgh, Scotland). 95: 689-94. PMID 26547230 DOI: 10.1016/J.Tube.2015.08.009  0.92
2015 Shell SS, Wang J, Lapierre P, Mir M, Chase MR, Pyle MM, Gawande R, Ahmad R, Sarracino DA, Ioerger TR, Fortune SM, Derbyshire KM, Wade JT, Gray TA. Leaderless Transcripts and Small Proteins Are Common Features of the Mycobacterial Translational Landscape. Plos Genetics. 11: e1005641. PMID 26536359 DOI: 10.1371/Journal.Pgen.1005641  0.92
2015 DeJesus MA, Ambadipudi C, Baker R, Sassetti C, Ioerger TR. TRANSIT - A Software Tool for Himar1 TnSeq Analysis. Plos Computational Biology. 11: e1004401. PMID 26447887 DOI: 10.1371/journal.pcbi.1004401  0.92
2015 Kieser KJ, Baranowski C, Chao MC, Long JE, Sassetti CM, Waldor MK, Sacchettini JC, Ioerger TR, Rubin EJ. Peptidoglycan synthesis in Mycobacterium tuberculosis is organized into networks with varying drug susceptibility. Proceedings of the National Academy of Sciences of the United States of America. 112: 13087-92. PMID 26438867 DOI: 10.1073/Pnas.1514135112  0.92
2015 DeJesus MA, Ioerger TR. Capturing Uncertainty by Modeling Local Transposon Insertion Frequencies Improves Discrimination of Essential Genes. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 12: 92-102. PMID 26357081 DOI: 10.1109/TCBB.2014.2326857  0.92
2015 Loesch K, Galaviz S, Hamoui Z, Clanton R, Akabani G, Deveau M, DeJesus M, Ioerger T, Sacchettini JC, Wallis D. Functional genomics screening utilizing mutant mouse embryonic stem cells identifies novel radiation-response genes. Plos One. 10: e0120534. PMID 25853515 DOI: 10.1371/Journal.Pone.0120534  0.92
2015 Shell SS, Chase MR, Ioerger TR, Fortune SM. RNA sequencing for transcript 5'-end mapping in mycobacteria. Methods in Molecular Biology (Clifton, N.J.). 1285: 31-45. PMID 25779309 DOI: 10.1007/978-1-4939-2450-9_3  0.92
2015 Wallis D, Loesch K, Galaviz S, Sun Q, DeJesus M, Ioerger T, Sacchettini JC. High-Throughput Differentiation and Screening of a Library of Mutant Stem Cell Clones Defines New Host-Based Genes Involved in Rabies Virus Infection. Stem Cells (Dayton, Ohio). 33: 2509-22. PMID 25752821 DOI: 10.1002/Stem.1983  0.92
2015 Dragset MS, Poce G, Alfonso S, Padilla-Benavides T, Ioerger TR, Kaneko T, Sacchettini JC, Biava M, Parish T, Argüello JM, Steigedal M, Rubin EJ. A novel antimycobacterial compound acts as an intracellular iron chelator. Antimicrobial Agents and Chemotherapy. 59: 2256-64. PMID 25645825 DOI: 10.1128/Aac.05114-14  0.92
2015 Long JE, DeJesus M, Ward D, Baker RE, Ioerger T, Sassetti CM. Identifying essential genes in Mycobacterium tuberculosis by global phenotypic profiling. Methods in Molecular Biology (Clifton, N.J.). 1279: 79-95. PMID 25636614 DOI: 10.1007/978-1-4939-2398-4_6  0.92
2015 DeJesus MA, Ioerger TR. Reducing type i errors in Tn-Seq experiments by correcting the skew in read count distributions Proceedings of the 7th International Conference On Bioinformatics and Computational Biology, Bicob 2015. 45-50.  0.92
2014 Odingo J, O'Malley T, Kesicki EA, Alling T, Bailey MA, Early J, Ollinger J, Dalai S, Kumar N, Singh RV, Hipskind PA, Cramer JW, Ioerger T, Sacchettini J, Vickers R, et al. Synthesis and evaluation of the 2,4-diaminoquinazoline series as anti-tubercular agents. Bioorganic & Medicinal Chemistry. 22: 6965-79. PMID 25456390 DOI: 10.1016/J.Bmc.2014.10.007  0.92
2014 Xin D, Perez LM, Ioerger TR, Burgess K. A multifaceted secondary structure mimic based on piperidine-piperidinones. Angewandte Chemie (International Ed. in English). 53: 3594-8. PMID 24591004 DOI: 10.1002/Anie.201400927  0.92
2014 Shi X, Festa RA, Ioerger TR, Butler-Wu S, Sacchettini JC, Darwin KH, Samanovic MI. The copper-responsive RicR regulon contributes to Mycobacterium tuberculosis virulence. Mbio. 5. PMID 24549843 DOI: 10.7490/F1000Research.1095241.1  0.92
2014 Lin PL, Ford CB, Coleman MT, Myers AJ, Gawande R, Ioerger T, Sacchettini J, Fortune SM, Flynn JL. Sterilization of granulomas is common in active and latent tuberculosis despite within-host variability in bacterial killing. Nature Medicine. 20: 75-9. PMID 24336248 DOI: 10.1038/Nm.3412  0.92
2013 Zhang YJ, Reddy MC, Ioerger TR, Rothchild AC, Dartois V, Schuster BM, Trauner A, Wallis D, Galaviz S, Huttenhower C, Sacchettini JC, Behar SM, Rubin EJ. Tryptophan biosynthesis protects mycobacteria from CD4 T-cell-mediated killing. Cell. 155: 1296-308. PMID 24315099 DOI: 10.1016/J.Cell.2013.10.045  0.92
2013 Ngubane NA, Gresh L, Ioerger TR, Sacchettini JC, Zhang YJ, Rubin EJ, Pym A, Khati M. High-throughput sequencing enhanced phage display identifies peptides that bind mycobacteria. Plos One. 8: e77844. PMID 24265677 DOI: 10.1371/Journal.Pone.0077844  0.92
2013 Xin D, Ko E, Perez LM, Ioerger TR, Burgess K. Evaluating minimalist mimics by exploring key orientations on secondary structures (EKOS). Organic & Biomolecular Chemistry. 11: 7789-801. PMID 24121516 DOI: 10.1039/C3Ob41848K  0.92
2013 DeJesus MA, Ioerger TR. A Hidden Markov Model for identifying essential and growth-defect regions in bacterial genomes from transposon insertion sequencing data. Bmc Bioinformatics. 14: 303. PMID 24103077 DOI: 10.1186/1471-2105-14-303  0.92
2013 Ioerger TR, O'Malley T, Liao R, Guinn KM, Hickey MJ, Mohaideen N, Murphy KC, Boshoff HI, Mizrahi V, Rubin EJ, Sassetti CM, Barry CE, Sherman DR, Parish T, Sacchettini JC. Identification of new drug targets and resistance mechanisms in Mycobacterium tuberculosis. Plos One. 8: e75245. PMID 24086479 DOI: 10.1371/Journal.Pone.0075245  0.92
2013 Small JL, Park SW, Kana BD, Ioerger TR, Sacchettini JC, Ehrt S. Perturbation of cytochrome c maturation reveals adaptability of the respiratory chain in Mycobacterium tuberculosis. Mbio. 4: e00475-13. PMID 24045640 DOI: 10.1128/Mbio.00475-13  0.92
2013 Lanzas F, Karakousis PC, Sacchettini JC, Ioerger TR. Multidrug-resistant tuberculosis in panama is driven by clonal expansion of a multidrug-resistant Mycobacterium tuberculosis strain related to the KZN extensively drug-resistant M. tuberculosis strain from South Africa. Journal of Clinical Microbiology. 51: 3277-85. PMID 23884993 DOI: 10.1128/Jcm.01122-13  0.92
2013 Stanley SA, Kawate T, Iwase N, Shimizu M, Clatworthy AE, Kazyanskaya E, Sacchettini JC, Ioerger TR, Siddiqi NA, Minami S, Aquadro JA, Grant SS, Rubin EJ, Hung DT. Diarylcoumarins inhibit mycolic acid biosynthesis and kill Mycobacterium tuberculosis by targeting FadD32. Proceedings of the National Academy of Sciences of the United States of America. 110: 11565-70. PMID 23798446 DOI: 10.1073/Pnas.1302114110  0.92
2013 Liu Z, Ioerger TR, Wang F, Sacchettini JC. Structures of Mycobacterium tuberculosis FadD10 protein reveal a new type of adenylate-forming enzyme. The Journal of Biological Chemistry. 288: 18473-83. PMID 23625916 DOI: 10.1074/Jbc.M113.466912  0.92
2013 Gokulan K, O'Leary SE, Russell WK, Russell DH, Lalgondar M, Begley TP, Ioerger TR, Sacchettini JC. Crystal structure of Mycobacterium tuberculosis polyketide synthase 11 (PKS11) reveals intermediates in the synthesis of methyl-branched alkylpyrones. The Journal of Biological Chemistry. 288: 16484-94. PMID 23615910 DOI: 10.1074/Jbc.M113.468892  0.92
2013 Gopinath K, Venclovas C, Ioerger TR, Sacchettini JC, McKinney JD, Mizrahi V, Warner DF. A vitamin B₁₂ transporter in Mycobacterium tuberculosis. Open Biology. 3: 120175. PMID 23407640 DOI: 10.1098/Rsob.120175  0.92
2013 DeJesus MA, Zhang YJ, Sassetti CM, Rubin EJ, Sacchettini JC, Ioerger TR. Bayesian analysis of gene essentiality based on sequencing of transposon insertion libraries. Bioinformatics (Oxford, England). 29: 695-703. PMID 23361328 DOI: 10.1093/Bioinformatics/Btt043  0.92
2013 DeJesus MA, Sacchettini JC, Ioerger TR. Reannotation of translational start sites in the genome of Mycobacterium tuberculosis. Tuberculosis (Edinburgh, Scotland). 93: 18-25. PMID 23273318 DOI: 10.1016/J.Tube.2012.11.012  0.92
2013 Ko E, Raghuraman A, Perez LM, Ioerger TR, Burgess K. Exploring key orientations at protein-protein interfaces with small molecule probes. Journal of the American Chemical Society. 135: 167-73. PMID 23270593 DOI: 10.1021/Ja3067258  0.92
2013 Dejesus MA, Ioerger TR. Improving discrimination of essential genes by modeling local insertion frequencies in transposon mutagenesis data 2013 Acm Conference On Bioinformatics, Computational Biology and Biomedical Informatics, Acm-Bcb 2013. 144-151. DOI: 10.1145/2506583.2506610  0.92
2012 Krieger IV, Freundlich JS, Gawandi VB, Roberts JP, Gawandi VB, Sun Q, Owen JL, Fraile MT, Huss SI, Lavandera JL, Ioerger TR, Sacchettini JC. Structure-guided discovery of phenyl-diketo acids as potent inhibitors of M. tuberculosis malate synthase. Chemistry & Biology. 19: 1556-67. PMID 23261599 DOI: 10.1016/J.Chembiol.2012.09.018  0.92
2012 Zhang YJ, Ioerger TR, Huttenhower C, Long JE, Sassetti CM, Sacchettini JC, Rubin EJ. Global assessment of genomic regions required for growth in Mycobacterium tuberculosis. Plos Pathogens. 8: e1002946. PMID 23028335 DOI: 10.1371/Journal.Ppat.1002946  0.92
2012 James JN, Hasan ZU, Ioerger TR, Brown AC, Personne Y, Carroll P, Ikeh M, Tilston-Lunel NL, Palavecino C, Sacchettini JC, Parish T. Deletion of SenX3-RegX3, a key two-component regulatory system of Mycobacterium smegmatis, results in growth defects under phosphate-limiting conditions. Microbiology (Reading, England). 158: 2724-31. PMID 22956756 DOI: 10.1099/Mic.0.060319-0  0.92
2012 Chia BS, Lanzas F, Rifat D, Herrera A, Kim EY, Sailer C, Torres-Chavolla E, Narayanaswamy P, Einarsson V, Bravo J, Pascale JM, Ioerger TR, Sacchettini JC, Karakousis PC. Use of multiplex allele-specific polymerase chain reaction (MAS-PCR) to detect multidrug-resistant tuberculosis in Panama. Plos One. 7: e40456. PMID 22792333 DOI: 10.1371/Journal.Pone.0040456  0.92
2012 Ford C, Yusim K, Ioerger T, Feng S, Chase M, Greene M, Korber B, Fortune S. Mycobacterium tuberculosis - Heterogeneity revealed through whole genome sequencing Tuberculosis. 92: 194-201. PMID 22218163 DOI: 10.1016/j.tube.2011.11.003  0.92
2012 La Rosa V, Poce G, Canseco JO, Buroni S, Pasca MR, Biava M, Raju RM, Porretta GC, Alfonso S, Battilocchio C, Javid B, Sorrentino F, Ioerger TR, Sacchettini JC, Manetti F, et al. MmpL3 is the cellular target of the antitubercular pyrrole derivative BM212. Antimicrobial Agents and Chemotherapy. 56: 324-31. PMID 22024828 DOI: 10.1128/Aac.05270-11  0.92
2011 Griffin JE, Gawronski JD, Dejesus MA, Ioerger TR, Akerley BJ, Sassetti CM. High-resolution phenotypic profiling defines genes essential for mycobacterial growth and cholesterol catabolism. Plos Pathogens. 7: e1002251. PMID 21980284 DOI: 10.1371/journal.ppat.1002251  0.92
2011 Raghuraman A, Ko E, Perez LM, Ioerger TR, Burgess K. Pyrrolinone-pyrrolidine oligomers as universal peptidomimetics. Journal of the American Chemical Society. 133: 12350-3. PMID 21780756 DOI: 10.1021/Ja2033734  0.92
2011 Ford CB, Lin PL, Chase MR, Shah RR, Iartchouk O, Galagan J, Mohaideen N, Ioerger TR, Sacchettini JC, Lipsitch M, Flynn JL, Fortune SM. Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection. Nature Genetics. 43: 482-6. PMID 21516081 DOI: 10.1038/Ng.811  0.92
2010 Ioerger TR, Feng Y, Chen X, Dobos KM, Victor TC, Streicher EM, Warren RM, Gey van Pittius NC, Van Helden PD, Sacchettini JC. The non-clonality of drug resistance in Beijing-genotype isolates of Mycobacterium tuberculosis from the Western Cape of South Africa. Bmc Genomics. 11: 670. PMID 21110864 DOI: 10.1186/1471-2164-11-670  0.92
2010 Wang F, Jain P, Gulten G, Liu Z, Feng Y, Ganesula K, Motiwala AS, Ioerger TR, Alland D, Vilchèze C, Jacobs WR, Sacchettini JC. Mycobacterium tuberculosis dihydrofolate reductase is not a target relevant to the antitubercular activity of isoniazid. Antimicrobial Agents and Chemotherapy. 54: 3776-82. PMID 20566771 DOI: 10.1128/Aac.00453-10  0.92
2010 Ioerger TR, Feng Y, Ganesula K, Chen X, Dobos KM, Fortune S, Jacobs WR, Mizrahi V, Parish T, Rubin E, Sassetti C, Sacchettini JC. Variation among genome sequences of H37Rv strains of Mycobacterium tuberculosis from multiple laboratories. Journal of Bacteriology. 192: 3645-53. PMID 20472797 DOI: 10.1128/Jb.00166-10  0.92
2009 Musa TL, Ioerger TR, Sacchettini JC. The tuberculosis structural genomics consortium: a structural genomics approach to drug discovery. Advances in Protein Chemistry and Structural Biology. 77: 41-76. PMID 20663481 DOI: 10.1016/S1876-1623(09)77003-8  0.92
2009 Ioerger TR, Koo S, No EG, Chen X, Larsen MH, Jacobs WR, Pillay M, Sturm AW, Sacchettini JC. Genome analysis of multi- and extensively-drug-resistant tuberculosis from KwaZulu-Natal, South Africa. Plos One. 4: e7778. PMID 19890396 DOI: 10.1371/Journal.Pone.0007778  0.56
2009 Ioerger TR, Sacchettini JC. Structural genomics approach to drug discovery for Mycobacterium tuberculosis. Current Opinion in Microbiology. 12: 318-25. PMID 19481971 DOI: 10.1016/J.Mib.2009.04.006  0.92
2008 Reddy MC, Kuppan G, Shetty ND, Owen JL, Ioerger TR, Sacchettini JC. Crystal structures of Mycobacterium tuberculosis S-adenosyl-L-homocysteine hydrolase in ternary complex with substrate and inhibitors. Protein Science : a Publication of the Protein Society. 17: 2134-44. PMID 18815415 DOI: 10.1110/Ps.038125.108  0.92
2008 Cho Y, Ioerger TR, Sacchettini JC. Discovery of novel nitrobenzothiazole inhibitors for Mycobacterium tuberculosis ATP phosphoribosyl transferase (HisG) through virtual screening. Journal of Medicinal Chemistry. 51: 5984-92. PMID 18778048 DOI: 10.1021/Jm800328V  0.92
2008 Javid-Majd F, Yang D, Ioerger TR, Sacchettini JC. The 1.25 A resolution structure of phosphoribosyl-ATP pyrophosphohydrolase from Mycobacterium tuberculosis. Acta Crystallographica. Section D, Biological Crystallography. 64: 627-35. PMID 18560150 DOI: 10.1107/S0907444908007105  0.92
2008 Zwart PH, Afonine PV, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, McKee E, Moriarty NW, Read RJ, Sacchettini JC, Sauter NK, Storoni LC, Terwilliger TC, Adams PD. Automated structure solution with the PHENIX suite. Methods in Molecular Biology (Clifton, N.J.). 426: 419-35. PMID 18542881 DOI: 10.1007/978-1-60327-058-8_28  0.92
2008 Reddy MC, Gokulan K, Jacobs WR, Ioerger TR, Sacchettini JC. Crystal structure of Mycobacterium tuberculosis LrpA, a leucine-responsive global regulator associated with starvation response. Protein Science : a Publication of the Protein Society. 17: 159-70. PMID 18042675 DOI: 10.1110/Ps.073192208  0.92
2008 Pai R, Sacchettini JC, Ioerger TR. Specificity normalization for identifying selective inhibitors in virtual screening Proceedings of the 2008 International Conference On Bioinformatics and Computational Biology, Biocomp 2008. 787-793.  0.92
2008 Pai R, Sacchettini JC, Ioerger TR. Analysis of protein-ligand interactions using localized stereochemical features Proceedings of the 2008 International Conference On Bioinformatics and Computational Biology, Biocomp 2008. 666-673.  0.92
2007 Murillo AC, Li HY, Alber T, Baker EN, Berger JM, Cherney LT, Cherney MM, Cho YS, Eisenberg D, Garen CR, Goulding CW, Hung LW, Ioerger TR, Jacobs WR, James MN, et al. High throughput crystallography of TB drug targets. Infectious Disorders Drug Targets. 7: 127-39. PMID 17970224 DOI: 10.2174/187152607781001853  0.92
2007 Gopal K, Ioerger TR. Distance metric learning through optimization of ranking Proceedings - Ieee International Conference On Data Mining, Icdm. 201-206. DOI: 10.1109/ICDMW.2007.113  0.92
2007 Gopal K, Sacchettini JC, Joerger TR. Database approaches and data representation in structural bioinformatics Proceedings of the 7th Ieee International Conference On Bioinformatics and Bioengineering, Bibe. 425-432. DOI: 10.1109/BIBE.2007.4375597  0.6
2007 Creel J, Menzel C, Ioerger T. Intention is commitment with expectation Proceedings of the Twentieth International Florida Artificial Intelligence Research Society Conference, Flairs 2007. 50-55.  0.92
2006 Romo TD, Sacchettini JC, Ioerger TR. Improving amino-acid identification, fit and C(alpha) prediction using the Simplex method in automated model building. Acta Crystallographica. Section D, Biological Crystallography. 62: 1401-6. PMID 17057345 DOI: 10.1107/S0907444906034019  0.92
2006 Pai R, Sacchettini J, Ioerger T. Identifying non-crystallographic symmetry in protein electron-density maps: a feature-based approach. Acta Crystallographica. Section D, Biological Crystallography. 62: 1012-21. PMID 16929102 DOI: 10.1107/S0907444906023158  0.92
2006 Fan X, Yen J, Miller M, Ioerger TR, Volz R. MALLET - A Multi-Agent Logic Language for Encoding Teamwork Ieee Transactions On Knowledge and Data Engineering. 18: 123-138. DOI: 10.1109/TKDE.2006.13  0.92
2006 Palmer V, Ioerger T. Coalition formation meets information theory Flairs 2006 - Proceedings of the Nineteenth International Florida Artificial Intelligence Research Society Conference. 2006: 98-103.  0.92
2006 Gopal K, Romo TD, McKee EW, Pai R, Smith JN, Sacchettini JC, Ioerger TR. TEXTAL: Crystallographic protein model building using AI and pattern recognition Ai Magazine. 27: 15-24.  0.92
2005 McKee EW, Kanbi LD, Childs KL, Grosse-Kunstleve RW, Adams PD, Sacchettini JC, Ioerger TR. FINDMOL: Automated identification of macromolecules in electron-density maps Acta Crystallographica Section D: Biological Crystallography. 61: 1514-1520. PMID 16239729 DOI: 10.1107/S0907444905027332  0.92
2005 Gopal K, Romo TD, Sacchettini JC, Ioerger TR. Determining relevant features to recognize electron density patterns in x-ray protein crystallography. Journal of Bioinformatics and Computational Biology. 3: 645-76. PMID 16108088 DOI: 10.1142/S0219720005001272  0.92
2005 Romo T, Gopal K, McKee E, Kanbi L, Pai R, Smith J, Sacchettini J, Ioerger T. TEXTAL: Al-based structural determination for X-ray protein crystallography Ieee Intelligent Systems. 20: 59-63. DOI: 10.1109/Mis.2005.114  0.92
2005 Ioerger TR. Automated detection of disulfide bridges in electron density maps using linear discriminant analysis Journal of Applied Crystallography. 38: 121-125. DOI: 10.1107/S0021889804030250  0.92
2005 He L, Ioerger TR. Incentive compatible mechanism design for synthetic task allocation in virtual organizations 2005 International Conference On Integration of Knowledge Intensive Multi-Agent Systems, Kimas'05: Modeling, Exploration, and Engineering. 2005: 205-210.  0.92
2005 Zhang Y, Volz RA, Ioerger TR. Observation-based proactive communication in team cooperation Proceedings of the International Conference On Autonomous Agents. 1397-1398.  0.92
2005 Zhang Y, Ioerger TR, Volz RA. Decision-theoretic proactive communication in multi-agent teamwork Conference Proceedings - Ieee International Conference On Systems, Man and Cybernetics. 4: 3903-3908.  0.92
2005 Cao S, Volz RA, Ioerger TR, Miller MS. On proactive helping behaviors in teamwork Proceedings of the 2005 International Conference On Artificial Intelligence, Icai'05. 2: 974-980.  0.92
2005 Gopal K, Romo T, Mckee E, Childs K, Kanbi L, Pai R, Smith J, Sacchettini J, Ioerger T. TEXTAL™: Automated crystallographic protein structure determination Proceedings of the National Conference On Artificial Intelligence. 3: 1483-1490.  0.92
2004 Gopal K, Romo TD, Sacchettini JC, Ioerger TR. Weighting features to recognize 3D patterns of electron density in X-ray protein crystallography. Proceedings / Ieee Computational Systems Bioinformatics Conference, Csb. Ieee Computational Systems Bioinformatics Conference. 255-65. PMID 16448019  0.92
2004 Ye S, Vakonakis I, Ioerger TR, LiWang AC, Sacchettini JC. Crystal structure of circadian clock protein KaiA from Synechococcus elongatus. The Journal of Biological Chemistry. 279: 20511-8. PMID 15007067 DOI: 10.1074/Jbc.M400077200  0.92
2004 Adams PD, Gopal K, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, Moriarty NW, Pai RK, Read RJ, Romo TD, Sacchettini JC, Sauter NK, Storoni LC, Terwilliger TC. Recent developments in the PHENIX software for automated crystallographic structure determination. Journal of Synchrotron Radiation. 11: 53-5. PMID 14646133 DOI: 10.1107/S0909049503024130  0.92
2004 He L, Ioerger TR. Combining bundle search with buyer coalition formation in electronic markets: A distributed approach through explicit negotiation Acm International Conference Proceeding Series. 60: 95-104. DOI: 10.1145/1052220.1052233  0.92
2004 Ioerger TR. Reasoning about beliefs, observability, and information exchange in teamwork Proceedings of the Seventeenth International Florida Artificial Intelligence Research Society Conference, Flairs 2004. 1: 430-435.  0.92
2004 He L, Ioerger TR. Task-oriented computational economic-based distributed resource allocation mechanisms for computational grids Proceedings of the International Conference On Artificial Intelligence, Ic-Ai'04. 1: 462-468.  0.92
2004 He L, Ioerger TR. Combining bundle search with buyer coalition formation in electronic markets: A distributed approach through negotiation Proceedings of the Third International Joint Conference On Autonomous Agents and Multiagent Systems, Aamas 2004. 3: 1440-1441.  0.92
2004 He L, Ioerger TR. An efficient heuristic bundle search algorithm for buyers in electronic markets Proceedings of the International Conference On Artificial Intelligence, Ic-Ai'04. 2: 729-735.  0.92
2004 Wollkind S, Valasek J, Ioerger TR. Automated conflict resolution for air traffic management using cooperative multiagent negotiation Collection of Technical Papers - Aiaa Guidance, Navigation, and Control Conference. 2: 1078-1088.  0.92
2004 Gopal K, Romo TD, Sacchettini JC, Ioerger TR. Evaluation of geometric & probabilistic distance measures to retrieve electron density patterns for protein structure determination Proceedings of the International Conference On Artificial Intelligence, Ic-Ai'04. 1: 427-432.  0.92
2004 Gopal K, Romo TD, Sacchettini JC, Ioerger TR. Efficient retrieval of electron density patterns for modeling proteins by X-ray crystallography Proceedings of the 2004 International Conference On Machine Learning and Applications, Icmla '04. 380-387.  0.92
2004 Zhang Y, Volz RA, Ioerger TR, Yen J. A decision-theoretic approach for designing proactive communication in multi-agent teamwork Proceedings of the Acm Symposium On Applied Computing. 1: 64-71.  0.92
2003 Ioerger TR, Sacchettini JC. TEXTAL system: artificial intelligence techniques for automated protein model building. Methods in Enzymology. 374: 244-70. PMID 14696377 DOI: 10.1016/S0076-6879(03)74012-9  0.92
2003 Ganesh R, Siegele DA, Ioerger TR. MOPAC: motif finding by preprocessing and agglomerative clustering from microarrays. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 41-52. PMID 12603016  0.92
2003 Xu D, Volz RA, Ioerger TR, Yen J. Modeling and analyzing multi-agent behaviors using predicate/transition nets International Journal of Software Engineering and Knowledge Engineering. 13: 103-124. DOI: 10.1142/S0218194003001184  0.92
2003 He L, Ioerger TR. A quantitative model of capabilities in multi-agent systems Proceedings of the International Conference On Artificial Intelligence Ic-Ai 2003. 2: 730-736.  0.92
2003 Widyantoro DH, Ioerger TR, Yen J. Tracking changes in user interests with a few relevance judgments International Conference On Information and Knowledge Management, Proceedings. 548-551.  0.92
2003 Xu D, Miller MS, Volz RA, Ioerger TR. Collaborative agents for C2 teamwork simulation Proceedings of the International Conference On Artificial Intelligence Ic-Ai 2003. 2: 723-729.  0.92
2002 Ioerger TR, Sacchettini JC. Automatic modeling of protein backbones in electron-density maps via prediction of Calpha coordinates. Acta Crystallographica. Section D, Biological Crystallography. 58: 2043-54. PMID 12454463 DOI: 10.1107/S0907444902016724  0.92
2002 Adams PD, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, Moriarty NW, Read RJ, Sacchettini JC, Sauter NK, Terwilliger TC. PHENIX: building new software for automated crystallographic structure determination. Acta Crystallographica. Section D, Biological Crystallography. 58: 1948-54. PMID 12393927 DOI: 10.1107/S0907444902016657  0.92
2002 Xu D, Volz R, Ioerger T, Yen J. Modeling and verifying multi-agent behaviors using predicate/transition nets Acm International Conference Proceeding Series. 27: 193-200. DOI: 10.1145/568760.568794  0.92
2002 Rozich R, Ioerger T, Yager R. FURL - A theory revision approach to learning fuzzy rules Ieee International Conference On Fuzzy Systems. 1: 791-796.  0.92
2002 Yu T, Ioerger TR, Sacchettini JC. Extracting fractal features for analyzing protein structure Proceedings - International Conference On Pattern Recognition. 16: 482-485.  0.92
2002 Widyantoro DH, Ioerger TR, Yen J. An incremental approach to building a cluster hierarchy Proceedings - Ieee International Conference On Data Mining, Icdm. 705-708.  0.92
2002 Rong J, Geng S, Valasek J, Ioerger TR. Air traffic conflict negotiation and resolution using an onboard multi-agent system Aiaa/Ieee Digital Avionics Systems Conference - Proceedings. 2.  0.92
2001 Linthicum DS, Tetin SY, Anchin JM, Ioerger TR. Antibody-ligand interactions: Computational modeling and correlation with biophysical measurements Combinatorial Chemistry and High Throughput Screening. 4: 439-449. PMID 11472232  0.92
2001 Hofle M, Linthicum DS, Ioerger T. Analysis of diversity of nucleotide and amino acid distributions in the VD and DJ joining regions in Ig heavy chains Molecular Immunology. 37: 827-835. PMID 11257304 DOI: 10.1016/S0161-5890(00)00110-3  0.92
2001 Biggers KE, Ioerger TR. Automatic generation of communication and teamwork within multi-agent teams Applied Artificial Intelligence. 15: 875-916. DOI: 10.1080/088395101753242679  0.92
2001 Widyantoro DH, Ioerger TR, Yen J. Learning User Interest Dynamics with a Three-Descriptor Representation Journal of the American Society For Information Science and Technology. 52: 212-225. DOI: 10.1002/1532-2890(2000)9999:9999<::AID-ASI1615>3.0.CO;2-O  0.92
2001 Johnson JC, Ioerger TR. A formal model of responsibilities in agent-based teams Proceedings of the International Conference On Autonomous Agents. 157-158.  0.92
2001 Yang L, Widyantoro DH, Ioerger T, Yen J. An entropy-based adaptive genetic algorithm for learning classification rules Proceedings of the Ieee Conference On Evolutionary Computation, Icec. 2: 790-796.  0.92
2001 Ioerger TR, Meeks JH, Nelson P. Investigation of density and flow relationships in congested traffic with videogrammetric data Transportation Research Record. 167-177.  0.92
2001 Tao Y, Ioerger TR, Tang YY. Extraction of rotation invariant signature based on fractal geometry Ieee International Conference On Image Processing. 1: 1090-1093.  0.92
2001 Yen J, Yin J, Ioerger TR, Miller MS, Xu D, Volz RA. CAST: Collaborative Agents for Simulating Teamwork Ijcai International Joint Conference On Artificial Intelligence. 1135-1142.  0.92
2000 Holton T, Ioerger TR, Christopher JA, Sacchettini JC. Determining protein structure from electron-density maps using pattern matching Acta Crystallographica Section D: Biological Crystallography. 56: 722-734. PMID 10818349 DOI: 10.1107/S0907444900003450  0.92
2000 Seif El-Nasr M, Yen J, Ioerger TR. FLAME - Fuzzy Logic Adaptive Model of Emotions Autonomous Agents and Multi-Agent Systems. 3: 219-257.  0.92
2000 Miller MS, Yin J, Volz RA, Ioerger TR, Yen J. Training teams with collaborative agents Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 1839: 63-72.  0.92
1999 Ioerger TR, Holton T, Christopher JA, Sacchettini JC. TEXTAL: a pattern recognition system for interpreting electron density maps Proceedings / ... International Conference On Intelligent Systems For Molecular Biology ; Ismb. International Conference On Intelligent Systems For Molecular Biology. 130-137. PMID 10786295  0.92
1999 Ioerger TR, Du C, Linthicum DS. Conservation of cys-cys trp structural triads and their geometry in the protein domains of immunoglobulin superfamily members Molecular Immunology. 36: 373-386. PMID 10444001 DOI: 10.1016/S0161-5890(99)00032-2  0.92
1997 Ioerger TR. The context-dependence of amino acid properties Proceedings / ... International Conference On Intelligent Systems For Molecular Biology ; Ismb. International Conference On Intelligent Systems For Molecular Biology. 5: 157-166. PMID 9322031  0.92
1995 Ioerger TR, Rendell LA, Subramaniam S. Searching for Representations to Improve Protein Sequence Fold-Class Prediction Machine Learning. 21: 151-175. DOI: 10.1007/Bf00993383  0.92
1994 Ioerger TR. The manipulation of images to handle indeterminacy in spatial reasoning Cognitive Science. 18: 551-593. DOI: 10.1016/0364-0213(94)90008-6  0.92
1993 Ioerger TR, Rendell L, Subramaniam S. Constructive induction and protein tertiary structure prediction Proceedings / . International Conference On Intelligent Systems For Molecular Biology ; Ismb. International Conference On Intelligent Systems For Molecular Biology. 1: 198-206. PMID 7584336  0.92
Show low-probability matches.